Sequence
atgc intronic sequence ATGC exonic sequence...tggcaaatagacccttgatctgcaaaatttcaatgtgttgcattggcatgaagaataacggataatgattctagattactaccatctactggtttcccagGTGAAACGAACATTAGGACAATTTACGCCAGCACAGTGGGACAAAGATGAGTGGCATCCCTTGCTTGGTCCATGGCGTTTCATTCAAGTTCTCAGTCTTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv01s0011g04370.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: LOC_Os01g02890.1 (Oryza sativa), 3'ss of exon 9
tggcaaatagacccttgatctgcaaaatttcaa--tgtgttgcattggcatgaagaataacggataatgattctagattac-taccatctactggtttccc--agGTGAAACGAACATTAGGACAATTTACGCCAGCACAGTGGGACAAAGATGAGTGGCATCCCTTGCTTGGTCCATGGCGTTTCATTCAAGTTCTCAGTCTTT
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-----gctatgttctgtatttctagtgcttcgaattatttgttcttgatctttatattgttagcctttcccgtgagtgcatatttcaccttttgcttctccatagGTAAAAAGGACGCTAGGCCAGTTCACACCAGCACAGTGGGACAAAGATGAGTGGTACCCTCTGCTTGGCCCTTGGAGATTCATCCAGGTGCTGAGCCTAT
upper sequence: Vv01s0011g04370.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA10G41430.1 (Glycine max), 3'ss of exon 10
----tggcaaatagacccttgatctgcaaaatttcaatgtgttgcattggcatgaagaat-aacggataatgattctagattactaccatctactggtttcccagGTGAAACGAACATTAGGACAATTTACGCCAGCACAGTGGGACAAAGATGAGTGGCATCCCTTGCTTGGTCCATGGCGTTTCATTCAAGTTCTCAGTCTTT
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gactatgttagttgattcttagtgttagtaatt--aatttattg-attgctaagtggactgaatgtgacttgagtgctctttgctatggttcttcg--ttatcagGTGAAACGAACATTAGGCCAATTCACACCAGCACAGTGGGACAAAGACGAGTGGCATCCACTGCTTGGTCCTTGGCGTTTCATTCAAGTGCTTAGTCTTT
upper sequence: Vv01s0011g04370.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: AT1G15110.2 (Arabidopsis thaliana), 3'ss of exon 10
tggcaaatagacccttgatctgcaaaatttcaatgtgttgcattggcatgaagaataacggataatgattctagattactaccatctactggtttcccagGTGAAACGAACATTAGGACAATTTACGCCAGCACAGTGGGACAAAGATGAGTGGCATCCCTTGCTTGGTCCATGGCGTTTCATTCAAGTTCTCAGTCTTT
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-------------gtaggtttgttcaaccttgagag--tgcatacacatggtcc-tagccgttgtacatccaatgagaattttgtatatt---ttttcagGTGAAAAGGACACTGGGGCAGTTCACACCAGCTCACTGGGACAAAGACGAGTGGCATCCGCTGCAGGGACCTTGGCGTTTTATTCAAGTACTCACTCTTTMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|110360098|gb|EC922718.1|EC922718EST: GAACATACGAGTGGGTTGGTATAAGCCGGCAGCCCAATATTATTGGCAAA GTGAAACGAACATTAGGACAATTTACGCCAGCACAGTGGGACAAAGATGAG
genomic: GAACATACGAGTGGGTTGGTATAAGCCGGCAGCCCAATATTATTGGCAAAgtatgttgtg ... ggtttcccagGTGAAACGAACATTAGGACAATTTACGCCAGCACAGTGGGACAAAGATGAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gcatgaagaataacggataatgattctagattactaccatctactggtttcccagGTGAAACGAACATTAGGACAATTTACGCCAGCACAGTGGGACAAAGATGAGTGGCATCCCTTGCTTGGTCCATGGCGTTTCATTCAAGTTCTCAGTCTTT
gaataac putative branch site (score: 2)
tttccc putative PPT
ataatgatt TA-rich tract
Putative cis-regulatory sequences
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
| | ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tggcaaatagacccttgatctgcaaaatttcaatgtgttgcattggcatgaagaataacggataatgattctagattactaccatctactggtttcccagGTGAAACGAACATTAGGACAATTTACGCCAGCACAGTGGGACAAAGATGAGTGGCATCCCTTGCTTGGTCCATGGCGTTTCATTCAAGTTCTCAGTCTTT
- - aaataga
- - - - - -cccttga
- - - - - - - - - -ctgcaaa
- - - - - - - - - - - - - - - caatgtg
- - - - - - - - - - - - - - - - - - - tgcattg
- - - - - - - - - - - - - - - - - - - - - - -gcatgaa
- - - - - - - - - - - - - - - - - - - - - - - - - - gaataac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -actacca